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David A Rubin

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https://www.readbyqxmd.com/read/27911809/unique-attributes-of-cyanobacterial-metabolism-revealed-by-improved-genome-scale-metabolic-modeling-and-essential-gene-analysis
#1
Jared T Broddrick, Benjamin E Rubin, David G Welkie, Niu Du, Nathan Mih, Spencer Diamond, Jenny J Lee, Susan S Golden, Bernhard O Palsson
The model cyanobacterium, Synechococcus elongatus PCC 7942, is a genetically tractable obligate phototroph that is being developed for the bioproduction of high-value chemicals. Genome-scale models (GEMs) have been successfully used to assess and engineer cellular metabolism; however, GEMs of phototrophic metabolism have been limited by the lack of experimental datasets for model validation and the challenges of incorporating photon uptake. Here, we develop a GEM of metabolism in S. elongatus using random barcode transposon site sequencing (RB-TnSeq) essential gene and physiological data specific to photoautotrophic metabolism...
December 1, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27906551/ald1613-a-novel-long-acting-monoclonal-antibody-to-control-acth-driven-pharmacology
#2
Andrew L Feldhaus, Katie Anderson, Benjamin Dutzar, Ethan Ojala, Patricia Dianne McNeill, Pei Fan, Jenny Mulligan, Sam Marzolf, Charlie Karasek, Michelle Scalley-Kim, Erica Stewart, Jens Billgren, Vanessa Rubin, Kathleen Schneider, David Jurchen, Kathy Snow, Shaun Barnett, Barbara Bengtsson, Brian Baker, John A Latham, Dan Allison, Leon F Garcia-Martinez
ACTH is the primary regulator of adrenal glucocorticoid production. Elevated levels of ACTH play a critical role in disease progression in several indications including congenital adrenal hyperplasia and Cushing's disease. We have generated a specific, high affinity, neutralizing monoclonal antibody (ALD1613) to ACTH. In vitro, ALD1613 neutralizes ACTH-induced signaling via all five melanocortin receptors and inhibited ACTH-induced cAMP accumulation in a mouse adrenal cell line (Y1). ALD1613 administration to wild-type rats significantly reduced plasma corticosterone levels in a dose dependent manner...
December 1, 2016: Endocrinology
https://www.readbyqxmd.com/read/27905010/erratum-to-aging-and-neurocognitive-functioning-in-hiv-infected-women-a-review-of-the-literature-involving-the-women-s-interagency-hiv-study
#3
David E Vance, Leah H Rubin, Victor Valcour, Drenna Waldrop-Valverde, Pauline M Maki
No abstract text is available yet for this article.
December 1, 2016: Current HIV/AIDS Reports
https://www.readbyqxmd.com/read/27903084/assessment-of-corticosteroid-related-quality-of-care-measures-for-uc-and-cd-in-the-united-states-a-claims-data-analysis
#4
David T Rubin, Haridarshan Patel, Sherry Shi, Reema Mody
OBJECTIVE: To evaluate corticosteroid (CS)-related quality of care indicators in patients with ulcerative colitis (UC) and Crohn's disease (CD) in the US. METHODS: Adults diagnosed with UC or CD and prescription fills for an oral CS were identified from a large commercial US claims database (2005- 2013). Quality indicators included prolonged CS use (≥60 days), use of CS-sparing therapy, and bone loss assessment. State-level variations in quality of care indicators were estimated using logistic regression models adjusting for age, gender, insurance plan type, and CD severity...
December 1, 2016: Current Medical Research and Opinion
https://www.readbyqxmd.com/read/27901501/identification-and-characterization-of-peptidases-secreted-by-quahog-parasite-unknown-qpx-the-protistan-parasite-of-hard-clams
#5
Ewelina Rubin, Glenn T Werneburg, Emmanuelle Pales Espinosa, David G Thanassi, Bassem Allam
Quahog parasite unknown (QPX) is a protistan parasite capable of causing deadly infections in the hard clam Mercenaria mercenaria, one of the most valuable shellfish species in the USA. QPX is an extracellular parasite found mostly in the connective tissue of clam mantle and, in more severe cases of infection, other clam organs. Histopathologic examinations revealed that QPX cells within clam tissues are typically surrounded by hollow areas that have been hypothesized to be, at least in part, a result of extracellular digestion of clam proteins by the parasite...
November 22, 2016: Diseases of Aquatic Organisms
https://www.readbyqxmd.com/read/27854362/a-bayesian-cluster-analysis-method-for-single-molecule-localization-microscopy-data
#6
Juliette Griffié, Michael Shannon, Claire L Bromley, Lies Boelen, Garth L Burn, David J Williamson, Nicholas A Heard, Andrew P Cope, Dylan M Owen, Patrick Rubin-Delanchy
Cell function is regulated by the spatiotemporal organization of the signaling machinery, and a key facet of this is molecular clustering. Here, we present a protocol for the analysis of clustering in data generated by 2D single-molecule localization microscopy (SMLM)-for example, photoactivated localization microscopy (PALM) or stochastic optical reconstruction microscopy (STORM). Three features of such data can cause standard cluster analysis approaches to be ineffective: (i) the data take the form of a list of points rather than a pixel array; (ii) there is a non-negligible unclustered background density of points that must be accounted for; and (iii) each localization has an associated uncertainty in regard to its position...
December 2016: Nature Protocols
https://www.readbyqxmd.com/read/27844393/verursacht-der-reflux-die-oberbauchschmerzen
#7
Norman Schöffel, Diana Rubin, Bernd von Lampe, Ralf-Marco Liehr, H C Mult, David A Groneberg
No abstract text is available yet for this article.
November 2016: MMW Fortschritte der Medizin
https://www.readbyqxmd.com/read/27836534/the-use-and-out-of-pocket-cost-of-urgent-care-clinics-and-retail-based-clinics-by-adolescents-and-young-adults-compared-with-children
#8
Charlene A Wong, Alexander Bain, Daniel Polsky, Raina M Merchant, Yaa Akosa Antwi, Gail Slap, David Rubin, Carol A Ford
PURPOSE: We describe the use and out-of-pocket cost of urgent care clinics (UCCs) and retail-based clinics (RBCs) as ambulatory care alternatives to physician offices among children, adolescents, and young adults, and examine differences in use by age. METHODS: Cross-sectional analysis describing diagnoses and out-of-pocket costs for 8.9 million UCC, RBC, and physician office encounters by privately insured child (aged <11 years), adolescent (aged 11-18 years), and young adult (aged 19-30 years) beneficiaries in a U...
November 8, 2016: Journal of Adolescent Health: Official Publication of the Society for Adolescent Medicine
https://www.readbyqxmd.com/read/27830782/evolution-of-osteocrin-as-an-activity-regulated-factor-in-the-primate-brain
#9
Bulent Ataman, Gabriella L Boulting, David A Harmin, Marty G Yang, Mollie Baker-Salisbury, Ee-Lynn Yap, Athar N Malik, Kevin Mei, Alex A Rubin, Ivo Spiegel, Ershela Durresi, Nikhil Sharma, Linda S Hu, Mihovil Pletikos, Eric C Griffith, Jennifer N Partlow, Christine R Stevens, Mazhar Adli, Maria Chahrour, Nenad Sestan, Christopher A Walsh, Vladimir K Berezovskii, Margaret S Livingstone, Michael E Greenberg
Sensory stimuli drive the maturation and function of the mammalian nervous system in part through the activation of gene expression networks that regulate synapse development and plasticity. These networks have primarily been studied in mice, and it is not known whether there are species- or clade-specific activity-regulated genes that control features of brain development and function. Here we use transcriptional profiling of human fetal brain cultures to identify an activity-dependent secreted factor, Osteocrin (OSTN), that is induced by membrane depolarization of human but not mouse neurons...
November 9, 2016: Nature
https://www.readbyqxmd.com/read/27825638/erlotinib-cabozantinib-or-erlotinib-plus-cabozantinib-as-second-line-or-third-line-treatment-of-patients-with-egfr-wild-type-advanced-non-small-cell-lung-cancer-ecog-acrin-1512-a-randomised-controlled-open-label-multicentre-phase-2-trial
#10
Joel W Neal, Suzanne E Dahlberg, Heather A Wakelee, Seena C Aisner, Michaela Bowden, Ying Huang, David P Carbone, Gregory J Gerstner, Rachel E Lerner, Jerome L Rubin, Taofeek K Owonikoko, Philip J Stella, Preston D Steen, Ahmed Ali Khalid, Suresh S Ramalingam
BACKGROUND: Erlotinib is approved for the treatment of all patients with advanced non-small-cell lung cancer (NSCLC), but is most active in the treatment of EGFR mutant NSCLC. Cabozantinib, a small molecule tyrosine kinase inhibitor, targets MET, VEGFR, RET, ROS1, and AXL, which are implicated in lung cancer tumorigenesis. We compared the efficacy of cabozantinib alone or in combination with erlotinib versus erlotinib alone in patients with EGFR wild-type NSCLC. METHODS: This three group, randomised, controlled, open-label, multicentre, phase 2 trial was done in 37 academic and community oncology practices in the USA...
November 4, 2016: Lancet Oncology
https://www.readbyqxmd.com/read/27789569/the-cancer-precision-medicine-knowledge-base-for-structured-clinical-grade-mutations-and-interpretations
#11
Linda Huang, Helen Fernandes, Hamid Zia, Peyman Tavassoli, Hanna Rennert, David Pisapia, Marcin Imielinski, Andrea Sboner, Mark A Rubin, Michael Kluk, Olivier Elemento
OBJECTIVE: This paper describes the Precision Medicine Knowledge Base (PMKB; https://pmkb.weill.cornell.edu), an interactive online application for collaborative editing, maintenance, and sharing of structured clinical-grade cancer mutation interpretations. MATERIALS AND METHODS: PMKB was built using the Ruby on Rails Web application framework. Leveraging existing standards such as the Human Genome Variation Society variant description format, we implemented a data model that links variants to tumor-specific and tissue-specific interpretations...
October 27, 2016: Journal of the American Medical Informatics Association: JAMIA
https://www.readbyqxmd.com/read/27785544/primary-rosai-dorfman-disease-of-the-femur
#12
Jonathan C Baker, Michael Kyriakos, Douglas J McDonald, David A Rubin
We report a 19-year-old man with the rare occurrence of primary osseous Rosai-Dorfman disease (RDD). The patient presented with a painful, solitary, bone marrow-replacing lesion in the distal femur. A diagnosis of chronic osteomyelitis was initially made on tissue from a CT-guided needle biopsy of the lesion; however, the diagnosis of RDD was eventually made after histological and immunohistochemical analysis of material from a subsequent curettage. No lymphadenopathy or other sites of involvement were found on clinical evaluation and PET-CT...
October 26, 2016: Skeletal Radiology
https://www.readbyqxmd.com/read/27777547/minimally-invasive-burn-care-a-review-of-seven-clinical-studies-of-rapid-and-selective-debridement-using-a-bromelain-based-debriding-enzyme-nexobrid%C3%A2
#13
L Rosenberg, Y Shoham, Y Krieger, G Rubin, F Sander, J Koller, K David, D Egosi, R Ahuja, A J Singer
Current surgical and non-surgical eschar removal-debridement techniques are invasive or ineffective. A bromelainbased rapid and selective enzymatic debriding agent was developed to overcome these disadvantages and compared with the standard of care (SOC). The safety and efficacy of a novel Debriding Gel Dressing (DGD) was determined in patients with deep partial and full thickness burns covering up to 67% total body surface area (TBSA). This review summarizes data from seven studies, four of which were randomized clinical trials that included a SOC or control vehicle...
December 31, 2015: Annals of Burns and Fire Disasters
https://www.readbyqxmd.com/read/27757864/-exocrine-pancreatic-insufficiency-pancreatic-cancer-and-mesenteric-artery-stenosis-a-rare-combination-of-different-diseases-leading-to-an-increasing-frequency-of-diarrhea
#14
Norman Schöffel, Diana Rubin, David A Groneberg, Ralf-Marco Liehr
No abstract text is available yet for this article.
October 2016: MMW Fortschritte der Medizin
https://www.readbyqxmd.com/read/27749842/clonal-evolution-of-chemotherapy-resistant-urothelial-carcinoma
#15
Bishoy M Faltas, Davide Prandi, Scott T Tagawa, Ana M Molina, David M Nanus, Cora Sternberg, Jonathan Rosenberg, Juan Miguel Mosquera, Brian Robinson, Olivier Elemento, Andrea Sboner, Himisha Beltran, Francesca Demichelis, Mark A Rubin
Chemotherapy-resistant urothelial carcinoma has no uniformly curative therapy. Understanding how selective pressure from chemotherapy directs the evolution of urothelial carcinoma and shapes its clonal architecture is a central biological question with clinical implications. To address this question, we performed whole-exome sequencing and clonality analysis of 72 urothelial carcinoma samples, including 16 matched sets of primary and advanced tumors prospectively collected before and after chemotherapy. Our analysis provided several insights: (i) chemotherapy-treated urothelial carcinoma is characterized by intra-patient mutational heterogeneity, and the majority of mutations are not shared; (ii) both branching evolution and metastatic spread are very early events in the natural history of urothelial carcinoma; (iii) chemotherapy-treated urothelial carcinoma is enriched with clonal mutations involving L1 cell adhesion molecule (L1CAM) and integrin signaling pathways; and (iv) APOBEC-induced mutagenesis is clonally enriched in chemotherapy-treated urothelial carcinoma and continues to shape the evolution of urothelial carcinoma throughout its lifetime...
December 2016: Nature Genetics
https://www.readbyqxmd.com/read/27746579/the-effects-of-song-familiarity-and-age-on-phenomenological-characteristics-and-neural-recruitment-during-autobiographical-memory-retrieval
#16
Jaclyn H Ford, David C Rubin, Kelly S Giovanello
Recent research suggests that emotional music clips can serve as a highly successful tool for eliciting rich autobiographical memories, and that the utility of these cues may be related to their subjective familiarity. The current study was designed to examine the effects of familiarity on phenomenological characteristics and neural recruitment during retrieval of autobiographical memories elicited by musical cues. Further, we were interested in understanding how these effects differ as a function of age. In an event-related functional neuroimaging study, participants retrieved autobiographical memories associated with age-specific popular musical clips...
September 2016: Psychomusicology
https://www.readbyqxmd.com/read/27740685/factors-related-to-genetic-testing-in-adults-at-risk-for-huntington-disease-the-prospective-huntington-at-risk-observational-study-pharos
#17
Kimberly A Quaid, Shirley W Eberly, Elise Kayson-Rubin, David Oakes, Ira Shoulson
Huntington disease (HD) is a late onset ultimately fatal neurodegenerative disorder caused by a CAG triplet repeat expansion in the Huntingtin gene which was discovered in 1993. The PHAROS study is a unique observational study of 1001 individuals at risk for HD who had not been previously tested for HD and who had no plans to do so. In this cohort, 104 (10%) individuals changed their minds and chose to be tested during the course of the study but outside of the study protocol. Baseline behavioral scores, especially apathy, were more strongly associated with later genetic testing than motor and chorea scores, particularly among subjects with expanded CAG repeat length...
October 14, 2016: Clinical Genetics
https://www.readbyqxmd.com/read/27735949/a-metabolic-synthetic-lethal-strategy-with-arginine-deprivation-and-chloroquine-leads-to-cell-death-in-ass1-deficient-sarcomas
#18
Gregory R Bean, Jeff C Kremer, Bethany C Prudner, Aaron D Schenone, Juo-Chin Yao, Matthew B Schultze, David Y Chen, Munir R Tanas, Douglas R Adkins, John Bomalaski, Brian P Rubin, Loren S Michel, Brian A Van Tine
Sarcomas comprise a large heterogeneous group of mesenchymal cancers with limited therapeutic options. When treated with standard cytotoxic chemotherapies, many sarcomas fail to respond completely and rapidly become treatment resistant. A major problem in the investigation and treatment of sarcomas is the fact that no single gene mutation or alteration has been identified among the diverse histologic subtypes. We searched for therapeutically druggable targets that are common to a wide range of histologies and hence could provide alternatives to the conventional chemotherapy...
October 13, 2016: Cell Death & Disease
https://www.readbyqxmd.com/read/27732030/scientific-evidence-versus-outdated-beliefs-a-response-to-brewin-2016
#19
David C Rubin, Dorthe Berntsen, Christin M Ogle, Samantha A Deffler, Jean C Beckham
We find Brewin's (2016) critiques of the narratives, power, and coherence measures in Rubin et al. (2016) without merit; his suggestions for a "revised formulation" (p. 1015) of coherence are contradicted by data readily available in the target article but ignored. We place Brewin's commentary in a historical context and show that it reiterates views of trauma memory fragmentation that are unsupported by data. We evaluate an earlier review of fragmentation of trauma memories (Brewin, 2014), which Brewin uses to support his position in the commentary...
October 2016: Journal of Abnormal Psychology
https://www.readbyqxmd.com/read/27730446/aging-and-neurocognitive-functioning-in-hiv-infected-women-a-review-of-the-literature-involving-the-women-s-interagency-hiv-study
#20
REVIEW
David E Vance, Leah H Rubin, Victor Valcour, Drenna Waldrop-Valverde, Pauline M Maki
HIV-infected women may be particularly vulnerable to certain types of neurocognitive impairments which may be exacerbated by aging and other predictors. Within the context of cognitive reserve, this article examines issues surrounding women as they age with HIV. For this, a review of 12 recent studies (2013-2016) using data from the Women's Interagency HIV Study (WIHS), the largest cohort study comparing HIV-infected and demographically matched uninfected women, is presented that specifically examines neurocognition...
December 2016: Current HIV/AIDS Reports
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